LXL04_001628 | RubberDandelionOmics

Gene overview

LXL04_001628

Reference: OH-1004 Chr: Chr01 Coordinates: 30389379-30393848 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2733 bp · LXL04_001628|LXL04_001628|OH1004|cDNA

ATGGAAGAAGATGACGAAGAAGTTATATCTGTCTCTGGTTCCAGCGATTCGAGCCAAGATTTCACCTGCGATGAATCTGAAGAGGGCGATGATGATTTATGTAGATCTGGCAGTGATGAAAGCTGTGAAGAAAACGCCCCCGCCCGACCAGCTGCGCACAATCAAAAATCGCAGAACGTGGATGCTCTTTTGAGAGGAAATCTCGTCGTCAAAAGGCAGCCACTACTTCCACGAGTTCTTTCAGTGACAGAAAGAGAAGC...

CDS

Download CDS FASTA

2733 bp · LXL04_001628|LXL04_001628|OH1004|CDS

ATGGAAGAAGATGACGAAGAAGTTATATCTGTCTCTGGTTCCAGCGATTCGAGCCAAGATTTCACCTGCGATGAATCTGAAGAGGGCGATGATGATTTATGTAGATCTGGCAGTGATGAAAGCTGTGAAGAAAACGCCCCCGCCCGACCAGCTGCGCACAATCAAAAATCGCAGAACGTGGATGCTCTTTTGAGAGGAAATCTCGTCGTCAAAAGGCAGCCACTACTTCCACGAGTTCTTTCAGTGACAGAAAGAGAAGC...

Protein

Download Protein FASTA

910 aa · LXL04_001628|LXL04_001628|OH1004|PROTEIN

MEEDDEEVISVSGSSDSSQDFTCDESEEGDDDLCRSGSDESCEENAPARPAAHNQKSQNVDALLRGNLVVKRQPLLPRVLSVTEREAVLKKPFKPPSSDGYSDQNQNLNRRLWARKRFVPWGSNRPALIPITNTFNLPVSTEEEIREESAKLPPDIEPLFLWQPEKSENTDVNSTPIEVDHMLVKFLRPHQREGVQFMFDCVSGLCTADINGCILADDMGLGKTLQSITLLYTLLRQGFDGKPMVKKGIIVTPTSLVSNW...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_001628`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_001628

Location Chr01:30389379-30393848 (+)

Description Similar to CHR25: Protein CHROMATIN REMODELING 25

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g19210`	Dissociates RAD51 from nucleoprotein filaments formed on dsDNA.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0762800`	Multifunctional ATPase that plays a role in homologous recombination (HR) which is a major pathway for repairing DNA double-strand breaks (DSBs), single-stranded DNA (ssDNA) gaps, and stalled or collapsed replication forks.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_001628 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000711 meiotic DNA repair synthesis Biological Process

GO:0000724 double-strand break repair via homologous recombination Biological Process

GO:0006281 DNA repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0006338 chromatin remodeling Biological Process

GO:0007131 reciprocal meiotic recombination Biological Process

GO:0010212 response to ionizing radiation Biological Process

GO:0010332 response to gamma radiation Biological Process

GO:0043150 DNA synthesis involved in double-strand break repair via homologous recombination Biological Process

GO:0045003 double-strand break repair via synthesis-dependent strand annealing Biological Process

GO:0051301 cell division Biological Process

GO:0051321 meiotic cell cycle Biological Process

KEGG gene cross-reference

ath:AT3G19210

dosa:Os02g0762800

dwi:6642593

gga:424611

hsa:8438

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Nucleus0.899

Rank 1 · LXL04_001628 · OH-1004

Cytoplasm0.165

Rank 2 · LXL04_001628 · OH-1004

Mitochondrion0.044

Rank 3 · LXL04_001628 · OH-1004

Cell membrane0.022

Rank 4 · LXL04_001628 · OH-1004

Endoplasmic reticulum0.011

Rank 5 · LXL04_001628 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF04851.22ResIII187-359 aa

PF00176.30SNF2-rel_dom190-494 aa

PF00270.36DEAD213-362 aa

PF00271.38Helicase_C541-655 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001628	`PF04851.22`	ResIII	187	359	6.9e-10	39.8
LXL04_001628	`PF00176.30`	SNF2-rel_dom	190	494	4e-71	240.2
LXL04_001628	`PF00270.36`	DEAD	213	362	5.6e-08	33.4
LXL04_001628	`PF00271.38`	Helicase_C	541	655	9.9e-21	74.8

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

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Protein	Organism	Description	Identity	Database	Confidence
`Q0PCS3`	Arabidopsis thaliana	Protein CHROMATIN REMODELING 25	67.876%	Swiss-Prot	strong database homology
`A4PBL4`	Oryza sativa subsp. japonica	DNA repair and recombination protein RAD54	72.613%	Swiss-Prot	strong database homology

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